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We present an overview of some concepts and methodologies we believe useful in modeling HIV pathogenesis. After a brief discussion of motivation for and previous efforts in the development of mathematical models for progression of HIV infection and treatment, we discuss mathematical and statistical ideas relevant to Structured Treatment Interruptions (STI). Among these are model development and validation procedures including parameter estimation, data reduction and representation, and optimal control relative to STI. Results from initial attempts in each of these areas by an interdisciplinary team of applied mathematicians, statisticians and clinicians are presented.

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Advances in fluorescent labeling of cells as measured by flow cytometry have allowed for quantitative studies of proliferating populations of cells. The investigations (Luzyanina et al. in J. Math. Biol. 54:57–89, 2007; J. Math. Biol., 2009; Theor. Biol. Med. Model. 4:1–26, 2007) contain a mathematical model with fluorescence intensity as a structure variable to describe the evolution in time of proliferating cells labeled by carboxyfluorescein succinimidyl ester (CFSE). Here, this model and several extensions/modifications are discussed. Suggestions for improvements are presented and analyzed with respect to statistical significance for better agreement between model solutions and experimental data. These investigations suggest that the new decay/label loss and time dependent effective proliferation and death rates do indeed provide improved fits of the model to data. Statistical models for the observed variability/noise in the data are discussed with implications for uncertainty quantification. The resulting new cell dynamics model should prove useful in proliferation assay tracking and modeling, with numerous applications in the biomedical sciences.

A partial differential equation model of a cantilevered beam with a tip mass at its free end is used to study damping in a composite. Four separate damping mechanisms consisting of air damping, strain rate damping, spatial hysteresis and time hysteresis are considered experimentally. Dynamic tests were performed to produce time histories. The time history data is then used along with an approximate model to form a sequence of least squares problems. The solution of the least squares problem yields the estimated damping coefficients. The resulting experiinentally determined analytical model is compared with the time histories via numerical simulation of the dynamic response. The procedure suggested here is compared with a standard modal damping ratio model commonly used in experimental modal analysis.

Abstract. There are a number of interesting applications where modeling elastic and/or viscoelastic materials is fundamental, including uses in civil engineering, the food industry, land mine detection and ultrasonic imaging. Here we provide an overview of the subject for both elastic and viscoelastic materials in order to understand the behavior of these materials. We begin with a brief introduction of some basic terminology and relationships in continuum mechanics, and a review of equations of motion in a continuum in both Lagrangian and Eulerian forms. To complete the set of equations, we then proceed to present and discuss a number of specific forms for the constitutive relationships between stress and strain proposed in the literature for both elastic and viscoelastic materials. In addition, we discuss some applications for these constitutive equations. Finally, we give a computational example describing the motion of soil experiencing dynamic loading by incorporating a specific form of constitutive equation into the equation of motion.